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(-) Description

Title :  TRICHODIENE SYNTHASE: COMPLEX WITH MG, INORGANIC PYROPHOSPHATE, AND BENZYL TRIETHYL AMMONIUM CATION
 
Authors :  L. S. Vedula, Y. Zhao, R. M. Coates, T. Koyama, D. E. Cane, D. W. Christianson
Date :  14 Jun 07  (Deposition) - 22 Apr 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.85
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Terpenoid Synthase Fold, Benzyl Triethyl Ammonium Chloride, Inorganic Pyrophosphate, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. S. Vedula, Y. Zhao, R. M. Coates, T. Koyama, D. E. Cane, D. W. Christianson
Exploring Biosynthetic Diversity With Trichodiene Synthase.
Arch. Biochem. Biophys. V. 466 260 2007
PubMed-ID: 17678871  |  Reference-DOI: 10.1016/J.ABB.2007.06.016
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRICHODIENE SYNTHASE
    Chains: A, B
    EC Number: 4.2.3.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TRI5, TOX 5
    Organism Scientific: FUSARIUM SPOROTRICHIOIDES
    Organism Taxid: 5514
    Synonym: SESQUITERPENE CYCLASE, TS

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
1BTM1Ligand/IonN-BENZYL-N,N-DIETHYLETHANAMINIUM
2EDO2Ligand/Ion1,2-ETHANEDIOL
3MG3Ligand/IonMAGNESIUM ION
4POP1Ligand/IonPYROPHOSPHATE 2-

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN B:225 , SER B:229 , GLU B:233BINDING SITE FOR RESIDUE MG B 701
2AC2SOFTWAREASP B:100 , ASP B:239 , ARG B:304BINDING SITE FOR RESIDUE MG B 702
3AC3SOFTWAREASP B:100BINDING SITE FOR RESIDUE MG B 703
4AC4SOFTWAREASP B:100 , ARG B:182 , ASN B:225 , SER B:229 , LYS B:232 , GLU B:233 , ARG B:304 , TYR B:305BINDING SITE FOR RESIDUE POP B 700
5AC5SOFTWARELEU B:97 , ARG B:182 , GLY B:186 , MET B:221 , ASN B:225 , TYR B:295 , TRP B:298 , TYR B:305BINDING SITE FOR RESIDUE BTM B 704
6AC6SOFTWAREPHE A:114 , TYR B:113 , TRP B:128 , ASN B:132 , PHE B:135 , ILE B:151BINDING SITE FOR RESIDUE EDO B 801
7AC7SOFTWARETYR A:113 , TRP A:128 , ASN A:132 , PHE B:114BINDING SITE FOR RESIDUE EDO A 802

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Q9Y)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:345 -Pro A:346
2Tyr B:345 -Pro B:346

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Q9Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Q9Y)

(-) Exons   (0, 0)

(no "Exon" information available for 2Q9Y)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:352
 aligned with TRI5_FUSSP | P13513 from UniProtKB/Swiss-Prot  Length:374

    Alignment length:352
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352  
           TRI5_FUSSP     3 NFPTEYFLNTTVRLLEYIRYRDSNYTREERIENLHYAYNKAAHHFAQPRQQQLLKVDPKRLQASLQTIVGMVVYSWAKVSKECMADLSIHYTYTLVLDDSKDDPYPTMVNYFDDLQAGREQAHPWWALVNEHFPNVLRHFGPFCSLNLIRSTLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASLWPKEQFNERSLFLEITSAIAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAVFSDKDPQVMDTIECFMHGYVTWHLCDRRYRLSEIYEKVKEEKTEDAQKFCKFYEQAANVGAVSPSEWAYPPVAQLANV 354
               SCOP domains d2q9ya_ A: Trichodiene synthase                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 2q9yA00 A:3-354 Farnesyl Diphosphate Synthase                                                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.hhhhh...hhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2q9y A   3 NFPTEYFLNTTVRLLEYIRYRDSNYTREERIENLHYAYNKAAHHFAQPRQQQLLKVDPKRLQASLQTIVGMVVYSWAKVSKECMADLSIHYTYTLVLDDSKDDPYPTMVNYFDDLQAGREQAHPWWALVNEHFPNVLRHFGPFCSLNLIRSTLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASLWPKEQFNERSLFLEITSAIAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAVFSDKDPQVMDTIECFMHGYVTWHLCDRRYRLSEIYEKVKEEKTEDAQKFCKFYEQAANVGAVSPSEWAYPPVAQLANV 354
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352  


Chain B from PDB  Type:PROTEIN  Length:352
 aligned with TRI5_FUSSP | P13513 from UniProtKB/Swiss-Prot  Length:374

    Alignment length:352
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352  
           TRI5_FUSSP     3 NFPTEYFLNTTVRLLEYIRYRDSNYTREERIENLHYAYNKAAHHFAQPRQQQLLKVDPKRLQASLQTIVGMVVYSWAKVSKECMADLSIHYTYTLVLDDSKDDPYPTMVNYFDDLQAGREQAHPWWALVNEHFPNVLRHFGPFCSLNLIRSTLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASLWPKEQFNERSLFLEITSAIAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAVFSDKDPQVMDTIECFMHGYVTWHLCDRRYRLSEIYEKVKEEKTEDAQKFCKFYEQAANVGAVSPSEWAYPPVAQLANV 354
               SCOP domains d2q9yb_ B: Trichodiene synthase                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 2q9yB00 B:3-354 Farnesyl Diphosphate Synthase                                                                                                                                                                                                                                                                                                                    CATH domains
           Pfam domains (1) TRI5-2q9yB01 B:3-354                                                                                                                                                                                                                                                                                                                                             Pfam domains (1)
           Pfam domains (2) TRI5-2q9yB02 B:3-354                                                                                                                                                                                                                                                                                                                                             Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh........hhhhhhhhhhhhhhhhh.hhhhh...hhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2q9y B   3 NFPTEYFLNTTVRLLEYIRYRDSNYTREERIENLHYAYNKAAHHFAQPRQQQLLKVDPKRLQASLQTIVGMVVYSWAKVSKECMADLSIHYTYTLVLDDSKDDPYPTMVNYFDDLQAGREQAHPWWALVNEHFPNVLRHFGPFCSLNLIRSTLDFFEGCWIEQYNFGGFPGSHDYPQFLRRMNGLGHCVGASLWPKEQFNERSLFLEITSAIAQMENWMVWVNDLMSFYKEFDDERDQISLVKNYVVSDEISLHEALEKLTQDTLHSSKQMVAVFSDKDPQVMDTIECFMHGYVTWHLCDRRYRLSEIYEKVKEEKTEDAQKFCKFYEQAANVGAVSPSEWAYPPVAQLANV 354
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: TRI5] (16)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (TRI5_FUSSP | P13513)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0045482    trichodiene synthase activity    Catalysis of the reaction: 2-trans,6-trans-farnesyl diphosphate = diphosphate + trichodiene.
biological process
    GO:0016106    sesquiterpenoid biosynthetic process    The chemical reactions and pathways resulting in the formation of sesquiterpenoid compounds, terpenoids with three isoprene units.

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  4.2.3.6
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        TRI5_FUSSP | P13513: 1jfa 1jfg 1kiy 1kiz 1yj4 1yyq 1yyr 1yys 1yyt 1yyu 2aek 2ael 2aet 2ps4 2ps5 2ps6 2ps7 2ps8 2q9z

(-) Related Entries Specified in the PDB File

1jfa TRICHODIENE SYNTHASE FROM FUSARIUM SPOROTRICHIOIDES
1jfg TRICHODIENE SYNTHASE FROM FUSARIUM SPOROTRICHIOIDES COMPLEXED WITH DIPHOSPHATE